Gene Expression & Genotyping

Services & Fees

GENE EXPRESSION & GENOTYPING: Home | Staff & Contact | Services | Instruments | Getting Started | Sample Requirements | Core Resources

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Offered Services

Antibody Sequencing

The service includes cloning and sequencing mouse heavy and light chains starting with total RNA, alignments of the heavy and light chains, to a detailed project report with annotated antibody DNA, protein sequences and CDRs.

Bravo Automations

Bravo 16s and RNAseq Library Automation (Bravo Automations)

16s ribosomal RNA sequencing can be used to identify and compare bacteria present within a given sample.

RNA-Seq is a powerful research tool for expression and variant analysis. Its’ application includes quantifying mRNA abundance; determining the transcriptional structure of genes: start sites, 5′ and 3′ ends, and splicing patterns; comparably detecting the changing expression levels of each transcript during development and under different conditions. It picks up all sequences that are present in the cell, regardless of their annotation status.

Gene Expression Core offers library preparation automation by Agilent Bravo Automation Workstation.The constructed libraries can be run on all NextGen sequencing platforms: Illumina HiSeq, MiSeq, and NextSeq. Sequence can be done by ICBR NextGen Sequencing Core.

We also offer Agilent’s SureSelect Target Enrichment platform which allows you to focus your NextGen sequencing workflow on key genomic regions of interest while reducing cost per sample. Other NextGen relative services include cDNA library construction, normalization and rRNA depletion (Ribominus). If requested, we will directly deliver the libraries to our ICBR NextGen Sequencing Core with an e-mail notification to you. Otherwise the library will be returned to you.

Custom Bravo Run (Bravo Automations)

The service includes the Bravo consumables and run assistance.

Cell-Line Authentication (Human)

This assay works only with human cell-lines. Submit 5×10^6 cells in 100ul 1X PBS on ice. Cells can be submitted fresh or frozen. If submitting frozen samples, they must have been snap frozen. Cell-line will be authenticated using GenePrint 10 System from Promega. The GenePrint 10 System allows co-amplification of repeat regions of nine short tandem repeat human loci, including the ASN-0002 loci (TH01, TPOX, vWA, Amelogenin, CSF1PO, D16S539, D7S820, D13S317 and D5S818) as well as D21S11. Data will be analyzed using GeneMapper v4.0 software and a Genotype report of your sample with number of repeats for each marker listed will be generated.

*The assay will not detect very low level of contaminants.

Custom Project

For NEW customers and NEW projects: Schedule a consultation to discuss experimental design and prepare a project outline with an ICBR staff member.

Digital PCR Analysis

This service allows the customer to do absolute quantification, rare allele detection, quantification using TaqMan SNP array and CNV (Copy Number Variation) in a more sensitive, specific, and precise way.

Genotyping

Fragment Analysis (Genotyping)

Genotypic characterization using the AB3730 (96 capillary technology).

There are 3 different dye settings availble 1) 6-FAM, VIC, NED and PET; 2) 5-FAM, JOE and NED; 3) 6-FAM, HEX and NED.

Other Genotyping Services (Genotyping)
A variety of genotypic characterization services are offered. Customers can request primer design, microsatellite sample preparation, AFLP PCR, genotyping by qPCR, large-scale mouse genotyping with mouse tails or ear punches. Customers can also provide ready-to-run samples as dye-labeled pools for analysis on select instruments.

STR Analysis (Genotyping)

1. STR analysis using the PowerPlex® 16 HS System from Promega.
2. The PowerPlex® 16 HS System allows co-amplification and three-color detection of sixteen loci (fifteen STR loci and Amelogenin), including Penta E, D18S51, D21S11, TH01, D3S1358, FGA, TPOX, D8S1179,vWA, Amelogenin, Penta D, CSF1PO, D16S539, D7S820, D13S317 and D5S818.
3. The samples will be processed on ABI 3730 Genome Analyzer.
4. Data will be analyzed using GeneMapper® v4.0 software.
5. Positive and negative controls will be run.

Microarray

Affymetrix Chip Hybridization and Scan (Microarray)

Customer provides labeled cRNA or ssDNA. Service includes hybridization, wash and scan of chip, and delivery of raw data.

Affymetrix Full Service (Microarray)

Microarrays are hybridization-based procedures that measure genomic-wide gene expression in one signal experiment. The 3’ IVT Expression Analysis uses RNA to produce cDNA from reverse transcription, and then generate multiple copies of biotin-labeled aRNA. This labeled aRNA is used for hybridization to GeneChip expression arrays.

The GeneChip® Gene 1.0 ST Array System offers the most advanced and cost-effective gene expression profiling option for whole transcript coverage. Available organisms of GeneST and Exon arrays are human, rat and mouse. We are using the Whole Transcript (WT) Assay approach the GeneST and Exon Array System.

We also can process Affymetrix samples using NuGen kit for low amount or degraded RNA samples.

Data is returned in the form of CEL image files of the scan and a text file of Array Metric QC.

RNA DNA QC

Agilent 2100 Bioanalyzer/2200 TapeStation Analysis (RNA DNA QC)

**Attention: If you are submitting libaries for a sequencing run in the NextGen core, please request their library evaluation services**

The Agilent 2100 Bioanalyzer and 2200 TapeStation system automatically perform the multiple steps of gel-based electrophoresis, replacing the need to run agarose gels to separate and quantitate your RNA or DNA samples. A software tool, RNA Integrity Number (RIN) can help scientists estimate the integrity of total RNA samples. Data is returned in the form of PDF.

Sample Concentration Measurement (RNA DNA QC)

Quantitate micro-volume of samples via NanoDrop, or Qubit. Please provide the DNA size if caculated nM concentration is needed.

RNA-Seq and NextGen Library Related Service

RNA-Seq is a powerful research tool for expression and variant analysis. Its’ application includes quantifying mRNA abundance; determining the transcriptional structure of genes; start sits, 5′ and 3′ ends, and splicing patterns; comparably detecting the changing expression levels of each transcript during development and under different conditions. It picks up all sequences that are present in the cell, regardless of their annotation status.

Sample Preparation

Service includes gDNA/RNA extraction, RNA clean up, PCR purification, revers transcription, ds cDNA synthesis, TA cloning and more

Sequencing Load Only

Five different load only services are offered. They are 1) Edited Load only: 700-1100 bases; 2) Edited Load only: Up to 600 bases; 3) Un-edited Load Only; 4) MLPA Load Only: Marker pre-added; and 5) MLPA Load Only: Marker to be added. For MLPA Load Only services, electrophoresis, fragment analysis and raw data delivery are included.

Single Cell Analysis (10X Genomics Chromium)

The 10x Genomics Chromium Controller System

The 10X Genomics Chromium Controller instrument is designed to capture thousands of single cells or DNA fragment, and combined them with reagents and gel bead (which contains barcoded oligonucleotides) in emulsion droplets (GEMs) to perform a variety of assays. Each GEM are uniquely barcoded.

It can perform Single Cell RNA-seq, Single Cell Copy Number Variation Profiling, Single Cell Immune Repertoire Profiling, Single Nuclei Expression Profiling, and Single Cell CITE-seq. For those assays, it can capture 500-10,000 individual cells per sample. Additionally, it partitions high molecular weight (HMW) DNA into individual GEMs to capture long-range information using Illumina sequencer. This assay requires low input of high molecular weight DNA to produce “linked read” information, which can be used for assembling genomes, assessing structural variants and obtaining genome phase information.

qPCR

General Service (qPCR)

qPCR analysis offered at Gene Expression and Genotyping are: SYBR® or TaqMan™ reagents allowing absolute, relative, relative standard or comparative Ct quantification. Services includes but not limited to qPCR Absolute Quantification Data Analysis/Per Standard Curve; RT Profiler PCR arrays – chemistry; qPCR post amplification read (SNP); qPCR Mid service on CFX (1 plate); qPCR Plate set-up for 384 well Absolute Quantitation; qPCR primer and probe sets assay design.

Quantification of NextGen Sequencing libraries by qPCR

This method is widely used because its ability to target adapter sequences for a specific sequences in NextGen libraries. It enables accurate quantification of NextGen libraries. It measures the functional molecular of the libraries.

SYBR Green-based Detection (qPCR)

This real-time PCR assay uses SYBR Green Chemistry to detect PCR products as it accumulate during real time PCR process.

TaqMan-based Detection (qPCR)

This real-time PCR assay consists a target-specific probe and two gene specific primes that can increase the specificity of quantification PCR. The fluorescence single generated by probe allows quantitate measurements of the accumulated PCR product and increases the specificity of gene detection.

Service Price List

Last Updated: 08/2019

Affymetrix

Services	UF	Non-Profit	Commercial	Details
Chip Hybridization and Scanning	$60	$69	$75	Customer provides labeled cRNA. Service includes hybridization, wash, and scan of the chip along with delivery of the raw data.
Affymetrix miRNA Array	$115	$135	$145	Service includes total RNA QC with Bioanalyzer, labeling, hybridization, wash, scan, and raw data delivery. Customer provides own arrays.
Affymetrix Labeling: 10+ Samples	$160	$180	$200	Service with bulk rate discount includes total RNA QC with Bioanalyzer, cDNA synthesis, labeling, hybridization, wash, scan, and raw data delivery. Customer provides own reagents and arrays.
Affymetrix Labeling: 1-9 Samples	$190	$210	$230	Service includes reagents but not arrays, total RNA QC with Bioanalyzer, cDNA synthesis, labeling, hybridization, wash, scan, and raw data delivery.
Affymetrix GeneChip Chemistry: 10+ Samples	$210	$230	$250	Service includes reagents, processing of Affymetrix GeneST, exon, HTA arrays starting with total RNA and raw data delivery. Bulk discount for 10 or more samples.
Affymetrix GeneChip Chemistry: 1-9 Samples	$225	$245	$265	Services includes processing Affymetrix GeneST, exon, HTA arrays starting with total RNA, and raw data delivery. Customer provides own arrays.

Agilent

Services	UF	Non-Profit	Commercial	Details
Agilent SureSelect Target Enrichment	$180	$220	$300	Service includes hybridized indexed gDNA libraries with biotinylated RNA baits, select targeted regions using magnetic streptavidin beads, and amplification of the libraries.

Antibody Sequencing

Services	UF	Non-Profit	Commercial	Details
Antibody Sequencing (VH VL domain)	$750	$850	$980	The service includes cloning and sequencing mouse heavy and light chains starting with total RNA, alignments of the heavy and light chains, to a detailed project report with annotated antibody DNA, protein sequences and CDRs. There will be extra $50 charge for RNA extraction if you submit hybridoma cell pellets (1X10⁶).

Bravo Automation

Services	UF	Non-Profit	Commercial	Details
16 s library Automation Per Sample (batch w/48 samples)	$74	$83.25	$92.50
16 s library Automation Per Sample (batch w/96 samples)	$69	$77.63	$86.25
AmliSeq library Automation (>384 samples)	$105	$107	$110	Service includes preparation, pooling of barcoded libraries to one single library, and loading on Ion Torrent chip for sequencing.
AmliSeq library Automation (<192 samples)	$200	$250	$324	Service includes preparation, pooling of barcoded libraries to one single library, and loading on Ion Torrent chip for sequencing.
AmliSeq library Automation (193-384 samples)	$160	$205	$279	Service includes preparation, pooling of barcoded libraries to one single library, and loading on Ion Torrent chip for sequencing.
AmpureBead Clean up Per Run (batch w/32 samples, Ampure not included)	$117.58	$132.28	$146.98
AmpureBead Clean up Per Run (batch w/48 samples, Ampure not included)	$128.76	$144.86	$160.95
AmpureBead Clean up Per Run (batch w/96 samples, Ampure not included)	$162.30	$182.59	$202.88
AmpureBead Clean up Per Run w/24 samples, Ampure not included)	$106.40	$119.70	$133
DNASeq library automation per sample (24 samples)	$165	$215	$289	Service includes DNASeq library preparation by Agilent's Bravo Automated Liquid Handling platform for 24 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.
DNASeq library automation per sample (48 samples)	$160	$210	$284	Service includes DNASeq library preparation by Agilent's Bravo Automated Liquid Handling platform for 44-48 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.
DNASeq library automation per sample (96 samples)	$150	$200	$274	Service includes DNASeq library preparation by Agilent's Bravo Automated Liquid Handling platform for 89-96 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.
Primer transfer from 96-well to 384-well plate Per Run w/up to 10 plates	$78.50	$88.31	$98.13
Primer transfer from 96-well to 384-well plate Per Run w/up to 20 plate	$96	$108	$120
Primer transfer from 96-well to 384-well plate Per Run w/up to 5 plates	$67.50	$75.94	$84.38
RNA-Seq library automation per sample (24 samples)	$220	$270	$344	Service include RNA-Seq library preparation by Agilent's Bravo Automated Liquid Handling platform for 24 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.
RNA-Seq library automation per sample (48 samples)	$200	$250	$324	Service include RNA-Seq library preparation by Agilent's Bravo Automated Liquid Handling platform for 44-48 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.
RNA-Seq library automation per sample (96 samples)	$175	$225	$299	Service include RNA-Seq library preparation by Agilent's Bravo Automated Liquid Handling platform for 89-96 samples. Final pooled library will be delivered to Sequencing facilities or customer. Automating sequencing library preparation minimizes errors, reduces hands-on time, and enables higher throughput.

Cell-Line Authentication

Services	UF	Non-Profit	Commercial	Details
Cell-line authentication per sample (5+ samples)	$50	$55	$65
Cell-line authentication per sample (up to 4 samples)	$60	$65	$75

CRISPR

Services	UF	Non-Profit	Commercial	Details
(CR001) CRISPR Project consultation (1 hour)	$0	$0	$0
(CR002) CRISPR Project consultation (additional hours)	$50	$57.50	$62.50
(CR003) Cell Line Optimization for Transduction or Nucleofection	$50	$57.50	$62.50	This work will determine the optimal conditions for transduction or nucleofection of a lentivirus construct for CRISPR modification in a particular cell line. The process will include cell culture, viral preparation and packaging, transfection and viral titration to determine the optimal multiplicity of infection (MOI) for transduction of nucleofection.
(CR004) CRISPR Single Cell KO in Cell Line Pool Using 1 sgRNA	$400	$460	$500	This work will generate a pool of CRISPR knock outs of a single gene in a mammalian cell line using 1 sgRNA. Please note that the individual targeting success of any 1 sgRNA can be difficult to predict so we recommend using three different sgRNA (CR005) if a particular sgRNA has not previously been validated. The process includes the design and synthesis of 1 sgRNA, cell culture, viral preparation and packaging, transfection, viral titration and Puromycin selection. Knock out success will be evaluated by T7 endonuclease assay and in vitro Cas9 assay. Requester will receive a heterogeneous pool of cells containing the CRISPR targeted gene KO. Please note that the pool contains multiple different KO clones as each targeting event and repair results in an individual genetic modification. Individual knockout clones can be isolated from the pool as described in CR006 and CR007.
(CR005) CRISPR Single Cell KO in Cell Line Pool Using 3 sgRNAs (Recommended)	$1000	$1150	$1250	This work will generate three pools of CRISPR knock outs of a single gene in a mammalian cell line using 3 sgRNAs. Please note that the individual targeting success of any 1 sgRNA can be difficult to predict so we recommend using three different sgRNA if a particular sgRNA has not previously been validated. The process includes the design and synthesis of 3 sgRNA, cell culture, viral preparation and packaging, transfection, viral titration and Puromycin selection. Knock out success for each sgRNA in the pool will be evaluated by T7 endonuclease assay and in vitro Cas9 assay. Requester will receive a heterogeneous pool of cells containing the CRISPR targeted gene KO for each sgRNA. Please note that the pool contains multiple different KO clones as each targeting event and repair results in an individual genetic modification. Individual knockout clones can be isolated from the pool as described in CR006 and CR007.
(CR006) Generation of CRISPR Single Gene KO Stable Cell Line Using 3 sgRNAs [3 Clonal Isolates per Gene]	$2500	$2875	$3125	Three individual validated knockout clones will be isolated from the CRISPR KO pools generated in CR004/CR005 for each sgRNA by limiting dilution cloning or other approaches depending on the cell line. Each isolated clone will be validated by T7 endonuclease assay and in vitro Cas9 assay.
(CR008) Vector-Free CRISPR Single Gene KO Stable Cell Line Using Nucleofection of Cas9 Protein and 3 sgRNA [3 Clonal Isolates]	$2100	$2415	$2625	No viral vector is used. Ribonucleoprotein (RNP) complex of Cas9 protein and sgRNA are directly introduced into the cell line of interest to generate a single gene knock out stable cell line for the desired gene. The process includes the design and synthesis of 1 sgRNA, sgRNA and Cas9 protein complex formation (RNP complexing), and nucleofection of the RNP into the cell line to generate heterogenous pool of Knockout clones. Overall knockout efficiency will be determined by T7 endonuclease assay and in vitro Cas 9 assay. Three individual knockout clones will be isolated from the CRISPR knockout pools by limiting dilution cloning or other approaches depending on the cell line. Each isolated clone will be validated by T7 endonuclease assay and in vitro Cas 9 assay.
(CR009) Vector-Free CRISPR Single Gene KO Cell Line Pool Using Nucleofection of Cas9 Protein and 1 sgRNA [3 Clonal Isolates]	$700	$805	$875	No viral vector is used. Ribonucleoprotein (RNP) complex of Cas9 protein and sgRNA are directly introduced into the cell line of interest to generate a single gene knock out stable cell line for the desired gene. The process includes the design and synthesis of 3 sgRNA, sgRNA and Cas9 protein complex formation (RNP complexing), and nucleofection of the RNP into the cell line to generate heterogenous pool of Knockout clones. Overall knockout efficiency will be determined by T7 endonuclease assay and in vitro Cas 9 assay. Three individual knockout clones for each sgRNA will be isolated from the CRISPR knockout pools by limiting dilution cloning or other approaches depending on the cell line. Each isolated clone will be validated by T7 endonuclease assay and in vitro Cas 9 assay.
(CR100-000) CRISPR Whole Genome or Targeted Genome Screening-Consultation	$0	$0	$0	Required no charge consultation for all CRISPR-based screening projects.
(CR100-111) CRISPR Genome Screening -1 chemical at 1 dose at 1 time point	$2995	$3445	$3745	Screening of 1 chemical at 1 dose for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-112) CRISPR Genome Screening -1 chemical at 1 dose at 2 time points	$4470	$5140	$5585	Screening of 1 chemical at 1 dose for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-113) CRISPR Genome Screening -1 chemical at 1 dose at 3 time points	$5945	$6840	$7430	Screening of 1 chemical at 1 dose for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-121) CRISPR Genome Screening -1 chemical at 2 doses at 1 time point	$4170	$4795	$5215	Screening of 1 chemical at 2 doses for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-122) CRISPR Genome Screening -1 chemical at 2 doses at 2 time points	$6030	$6935	$7535	Screening of 1 chemical at 2 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-123) CRISPR Genome Screening -1 chemical at 2 dose at 3 time points	$7890	$9075	$9865	Screening of 1 chemical at 2 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-131) CRISPR Genome Screening -1 chemical at 3 doses at 1 time point	$5345	$6145	$6680	Screening of 1 chemical at 3 doses for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-132) CRISPR Genome Screening -1 chemical at 3 doses at 2 time points	$7205	$8285	$9005	Screening of 1 chemical at 3 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-133) CRISPR Genome Screening -1 chemical at 3 doses at 3 time points	$9065	$10425	$11335	Screening of 1 chemical at 3 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-211) CRISPR Genome Screening -2 chemicals at 1 dose at 1 time point	$3515	$4045	$4395	Screening of 2 chemicals at 1 dose for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-212) CRISPR Genome Screening -2 chemicals at 1 dose at 2 time points	$5375	$6180	$6720	Screening of 2 chemicals at 1 dose for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-213) CRISPR Genome Screening -2 chemicals at 1 dose at 3 time points	$7235	$8320	$9045	Screening of 2 chemicals at 1 dose for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-221) CRISPR Genome Screening -2 chemicals at 2 doses at 1 time point	$5045	$5800	$6035	Screening of 2 chemicals at 2 dose2 for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-222) CRISPR Genome Screening -2 chemicals at 2 doses at 2 time points	$7290	$8385	$9115	Screening of 2 chemicals at 2 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-223) CRISPR Genome Screening -2 chemicals at 2 doses at 3 time points	$9540	$10975	$11925	Screening of 2 chemicals at 2 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-231) CRISPR Genome Screening -2 chemicals at 3 doses at 1 time point	$5530	$6360	$6915	Screening of 2 chemicals at 3 doses for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-232) CRISPR Genome Screening -2 Chemicals at 3 doses at 2 time points	$8165	$9390	$10206	Screening of 2 chemicals at 3 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-233) CRISPR Genome Screening -2 chemicals at 3 doses at 3 time point	$10800	$12420	$13500	Screening of 2 chemicals at 3 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-311) CRISPR Genome Screening -3 chemicals at 1 dose at 1 time point	$4040	$4646	$5050	Screening of 3 chemicals at 1 dose for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-312) CRISPR Genome Screening -3 chemicals at 1 dose at 2 time points	$5900	$6785	$7375	Screening of 3 chemicals at 1 dose for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-313) CRISPR Genome Screening -3 chemicals at 1 dose at 3 time points	$7765	$8930	$9705	Screening of 3 chemicals at 1 dose for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-321) CRISPR Genome Screening -3 chemicals at 2 doses at 1 time point	$5540	$6371	$6925	Screening of 3 chemicals at 2 dose2 for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-322) CRISPR Genome Screening -3 chemicals at 2 doses at 2 time points	$8175	$9400	$10220	Screening of 3 chemicals at 2 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-323) CRISPR Genome Screening -3 chemicals at 2 doses at 3 time points	$10810	$12430	$13515	Screening of 3 chemicals at 2 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-331) CRISPR Genome Screening -3 chemicals at 3 doses at 1 time point	$6025	$6929	$7531	Screening of 3 chemicals at 3 doses for 1 time point. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-332) CRISPR Genome Screening -3 chemicals at 3 doses at 2 time points	$9050	$10407	$11315	Screening of 3 chemicals at 3 doses for 2 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.
(CR100-333) CRISPR Genome Screening -3 chemicals at 3 doses at 3 time point	$12075	$13886	$15100	Screening of 3 chemicals at 3 doses for 3 time points. Performed in triplicate. Please order Bioinformatics Data analysis and NGS NEXTSEQ 500 1 x 75 services separately at additional costs.

Data Analysis

Services	UF	Non-Profit	Commercial	Details
Data Analysis	$50	$57.50	$62.50	Service includes array analysis, p-value, FDR and fold change.

Digital PCR Analysis

Services	UF	Non-Profit	Commercial	Details
Digital PCR Drop-off Service	$25	$28	$45	Service includes starting with ready to run BioRad digital PCR plate to raw data file delivery. Process includes droplet generation, PCR amplification, read the plate reader and raw data file delivery.
Digital PCR Droplet Auto Generation/Plate Reader walk up service per EXTRA 8 reactions	$55	$62	$77	Service includes the 1st 8 rections for the drop off plate
Digital PCR Droplet Auto Generation/Plate Reader walk up servicefor the 1st 8 rections	$67	$75	$94	Service includes the 1st 8 rections for the drop off plate
Digital PCR full service for the 1st 8 reactions	$97	$109	$121	Service includes the 1st 8 rections set up and date delivery as excel format for BioRad digital PCR analysis with primers/assays provided by customer
Digital PCR full service per EXTRA 8 reactions	$87	$98	$109	Service includes every extra 8 rections set up and date delivery as excel format for BioRad digital PCR analysis with primers/assays provided by customer
Illumina Library quantification by digital PCR (per sample)	$45	$50	$56	NextGen Library quantification by BioRad Digital PCR system.

General Services

Services	UF	Non-Profit	Commercial	Details
Consultation and data interpretation (1 hour)	$50	$75	$100	Service includes one hour of assisting customers in understanding their qPCR data.

Genotyping

Services	UF	Non-Profit	Commercial	Details
3730 Fragment Analysis (1-12 samples)	$2.20	$2.49	$2.82	Service includes reagent preparation, plate run on ABI 3730 DNA Analyzer machine and QC data delivery.
3730 Fragment Analysis (13-48 samples)	$2.00	$2.26	$2.60	Service includes reagent preparation, plate run on ABI 3730 DNA Analyzer machine and QC data delivery.
3730 Fragment Analysis (49-96 samples)	$1.75	$1.98	$2.28	Service includes reagent preparation, plate run on ABI 3730 DNA Analyzer machine and QC data delivery.
GA-A03: AdvanCE FS96 Assay	$1	$1	$1	Service for fragmentation analysis by Advance FS 96 instrument.
GA-A04: Dilutions for Fragment Analysis/well	$0.25	$0.25	$0.25	Service includes the dilutions for samples of fragment analysis.
GA-B10: AFLP RL/PS PCR per 10 rxn	$60	$60	$90	Service includes primers purchase, protocol design, and preparation for PCR reaction of AFLP for genotyping.
GA-B11: AFLP Selective PCR per 10 rxn	$60	$60	$90	Service includes primers purchase, protocol design, and preparation for PCR reaction of AFLP for genotyping.
GA-C01: Microsatellite Sample Preparation	$200	$200	$400	Service includes DNA isolation of Microsatellite for genotyping.
GA-C02: Microsatellite Data Collection and Primer Design	$800	$800	$1600	Service includes creation of microsatellite primers and PCR amplificaiton.
GA-D01: Mouse Genotyping: (1 rxn)	$7.50	$7.50	$15	Service includes 1 reaction of PCR, and Agrose gel running for mouse genotyping.
GA-D02: Mouse Genotyping: (2 rxn)	$12.50	$12.50	$25.00	Service includes 2 reaction of PCR, and Agrose gel running for mouse genotyping.
GA-D03: Mouse Genotyping: (3 rxn)	$17.50	$17.50	$35.00	Service includes 3 reaction of PCR, and Agrose gel running for mouse genotyping.
GA-F01: Species	$150	$150	$300	Service includes genotyping on differences of speices.
GA-F02: Gender	$100	$100	$200	Service includes genotyping on differences of gender.
GA-F04: Combined Species/Gender	$187.50	$187.50	$375	Service includes genotyping on differences of speices and gender.
STR Analysis (per sample)	$55	$60	$72	STR analysis using the PowerPlex® 16 HS System from Promega.

RNA DNA QC

Services	UF	Non-Profit	Commercial	Details
Bioanalyzer run for DNA RNA QC (up to 11/12 samples)	$71	$96	$126	Service includes RNA and DNA quality assessment, reagents, chip, and ladder for Nano, Pico, DNA 1000, or DNA 12000. Due to increased reagent cost, the Bioanalyzer/TapeStation service fees is increased accordingly starting Jan 2, 2018. Please check the service fee before you submit your RNA/DNA QC samples.
DNA High Sensitivity Bioanalyzer (up to 11 samples)	$99	$123	$126	Service includes fragmented DNA, NextGen libray quality assessment with concentrations as low as 5 pg/µL. 11samples/per chip. Due to increased reagent cost, the Bioanalyzer/TapeStation service fees is increased accordingly starting Jan 2, 2018. Please check the service fee before you submit your RNA/DNA QC samples.
DNA High Sensitivity TapeStation per plate ( 96 samples) for DNA, Fragment, NextGen library QC	$582	$782	$962	DNA High Sensitivity TapeStation per plate (96 samples) for DNA Fragment, NextGen library QC: High Sensitivity DNA ScreenTape per plate service for DNA fragment and NextGen libraries with the sample concentration of 10-1000pg/ul.
DNA High Sensitivity TapeStation/Bioanalyzer run (per sample) for DNA Fragment, NextGen library QC	$10.20	$13.20	$18.20	Service includes fragmented DNA, NextGen library quality assessment with concentrations as low as 5pg/ul. Due to increased reagent cost, the Bioanalyzer/TapeStation service fees is increased accordingly starting Jan 2, 2018. Please check the service fee before you submit your RNA/DNA QC samples.
DNA RNA QC by TapeStation/Bioanalyzer (per sample)	$7.20	$10.20	$16.20	Service includes RNA and DNA quality assessment, reagents, chip, and ladder for Nano, Pico, DNA 1000, or DNA 12000. Minimum of 7 samples to run chip. If submitting less than 7 samples, customer will have to wait until we have at least 7 samples to fill up the chip. Due to increased reagent cost, the Bioanalyzer/TapeStation service fees is increased accordingly starting Jan 2, 2018. Please check the service fee before you submit your RNA/DNA QC samples.
NanoDrop: Samples #1-8	$3	$5	$8	Customer provides at least 2ul/per sample for Nanodrop.
NanoDrop: Samples #17-24	$7	$9	$12	Customer provides at least 2ul/per sample for Nanodrop.
NanoDrop: Samples #25-32	$9	$11	$14	Customer provides at least 2ul/per sample for Nanodrop.
NanoDrop: Samples #9-16	$5	$7	$10	Customer provides at least 2ul/per sample for Nanodrop.
PicoGreen Assay: 1-16 Samples	$38	$57	$75	Service includes quantitation assay of DNA and RNA for 1-16 Samples.
PicoGreen Assay: 17-40 Samples	$50	$75	$75	Service includes quantitation assay of DNA and RNA for 17-40 Samples.
Small RNA Bioanalyzer	$85	$110	$135	Service includes resolving small nucleic acids in the size range of 6 to 150 nt. 11 samples/ per chip. Due to increased reagent cost, the Bioanalyzer/TapeStation service fees is increased accordingly starting Jan 2, 2018. Please check the service fee before you submit your RNA/DNA QC samples.
TapeStation per plate (96 samples)	$552	$752	$932	TapeStation per plate (96 samples): DNA ScreenTape per plate service for DNA fragment and NextGen libraries with the sample concentration of 1-50ng/ul, or RNA ScreenTape per plate service with the sample concentration of 25-500ng/ul.

RNA DNA QC-Concentration Measurement

Services	UF	Non-Profit	Commercial	Details
Qubit Quantification (one charge for every 1-10 samples)	$20	$23	$25	Service includes quantification of DNA and RNA samples by using Qubit. Cost of reagents included.

RNA-Seq & NextGen Related Services

Services	UF	Non-Profit	Commercial	Details
cDNA library construction and normalization	$1000	$1500	$2200	Service begins with total RNA to normalized cDNA library, to limit the sequencing read of abundant genes.
IDT Exome Capture Library Construction with Pre-pooling of 3 or less (per sample)	$330	$370	$420	IDT Exome Capture Library Construction with Pre-pooling of 3 or less (per sample)
IDT Exome Capture Library Construction with Pre-pooling of 4 and up (per sample)	$300	$340	$390	IDT Exome Capture Library Construction with Pre-pooling of 4 and up (per sample)
IDT Exome Capture Library Construction Without Pre-pooling (per sample)	$370	$410	$460	IDT Exome Capture Library Construction Without Pre-pooling (per sample)
Illumina RNA-Seq libraries (Poly A)	$150	$187	$210	Service includes total RNA QC with Bioanalyzer, library construction, library QC, and library delivery. There will be extra $50 if starts with cell pellet or tissue samples.
Illumina RNA-Seq library Prep for low input, ribo-depletion or degraded RNA	$220	$275	$299	Service starts with low input total RNA OR ribo depletion followed by library construction, library QC and library delivery to customers or NextGen for sequencing.
Illumina RNA-Seq library Prep (polyA with 140 samples and up)	$140	$175	$196
Illumina RNA-Seq library Prep (polyA with 500 samples and up)	$120	$150	$168
Illumina Small RNA libray w/Barcode	$300	$354	$375	Service includes total RNA QC with Bioanalyzer, library construction, library QC, and library delivery.
NEB RNA-Seq Library preparation (kit provided)	$165	$200	$250	Service includes total RNA QC with Bioanalyzer, directional library construction, library QC, and library delivery.
rRNAs Depletion	$160	$175	$200	Service includes removal of human, mouse, rat, bacteria, and plant ribosomal RNA.

Reagents & Supplies

Services	UF	Non-Profit	Commercial	Details
Affymetrix Reagents	$85	$85	$85
GA-G05 Miscellaneous	$0	$0	$0	Service includes purchase of customer's kits, supplies, reagents, etc.
Generic reagent & supply order	$23	$-	$-
RNA Extraction Reagents	$10	$10	$10

Real-Time PCR

Services	UF	Non-Profit	Commercial	Details
Additional sample plate	$25	$25	$25	Price per additional sample plate run on the AB 7500 RT-PCR self-service instrument.
Sample plate	$25	$25	$25	Price per inital sample plate run on the AB 7500 RT-PCR self-service instrument.
Training	$60	$60	$60	Pricing is per one hour session, without a sample plate run. Or per three hour session with customer providing a sample plate to run on the instrument.

Sample Preparation

Services	UF	Non-Profit	Commercial	Details
ds cDNA Synthesis	$125	$140	$165	Service includes ds cDNA synethsis starting with total RNA using Mint2 kit.
GA-B02: PCR Reaction	$10	$10	$20	Service includes primers purchase, protocol design, and preparation for PCR reaction.
GA-B03: PCR Purification	$10	$10	$20	Service includes PCR purification for products of PCR reaction using QIAquick PCR Purification Kit.
GA-C03: Primer Synthesis	$8	$8	$8	Per primer service includes oligonucleotide synthesis of the desired sequence.
GA-C04: Primer Screen/primer	$150	$150	$300	Per primer screen.
GA-C05: Primer Optimization/primer	$150	$150	$300	Per primer optimization.
GA-G03: gDNA extraction (<20 samples)	$15	$30	$45	Per sample service includes gDNA extraction with less than 20 samples.
gDNA Extraction (>20 samples)	$10	$15	$20	Per sample service includes gDNA extraction from different organisms and tissues with 20 samples or up.
microbiome DNA extraction	$20	$24	$27
Plasmid DNA Extraction	$15	$30	$45	Service includes plasmid DNA extraction for bacterial plate.
Reverse Transcription (>20 samples)	$30	$37.50	$37.50	Per sample (20 or more) service includes synthesis of cDNA starting with total RNA.
Reverse Transcription (<20 samples)	$40	$50	$50	Per sample (up to 20) service includes synthesis of cDNA starting with total RNA.
RNA Clean-up	$22	$33	$44	Per sample service includes RNA clean up for gDNA contaminated RNA samples.
RNA Extraction	$50	$60	$75	Service includes RNA extraction from different organisms and tissues as requested. If customer provides the reagents, discount will be applied.
TA Cloning	$35	$70	$95	Service includes PCR product cloned to TA vector.

Sequencing Load Only

Services	UF	Non-Profit	Commercial	Details
Edited Load Only: 700-1100 bases	$5	$5	$5	Service includes electrophoresis on customer supplied purified reacted samples, edited 700-1100bp.
Edited Load Only: Up to 600 bases	$3	$3	$3	Service includes electrophoresis on customer supplied purified reacted samples, edited up to 600bp.
MLPA Load Only: Marker pre-added	$75	$75	$75	MLPA load only in 96 well plate format; Marker pre-added.
MLPA Load Only: Marker to be added	$125	$125	$125	MLPA load only in 96 well plate format; Marker will be added.
Un-edited Load Only	$2	$2	$2	Service includes electrophoresis on customer supplied purified reacted samples and raw data delivery.

Shipping

Services	UF	Non-Profit	Commercial	Details
Shipping	$40	$-	$-

Single Cell Analysis

Services	UF	Non-Profit	Commercial	Details
10XGenomics Single Cell 3'/5' RNAseq Library Prep (per sample)	$1765.50	$1985.06	$2205.63
10XGenomics Single Cell CNV library Prep (Per sample batch with 16 samples are required)	$1720	$1935	$2150
10XGenomics Single Human/Mouse T cell V(D)J Library Prep (per sample )	$1850	$2081.25	$2312.50
10X Genomics Single Cell Chip Cost	$247	$247	$247	A chip cost will be applied if you perform less than 4 samples for 10X Genomics Chromium study.

qPCR

Services	UF	Non-Profit	Commercial	Details
Absolute Quantification Data Analysis (Per Standard Curve)	$30	$45	$60	Service includes the creation of a standard curve to quantify unknowns to the standard curve and extrapolate a value.
Mid Service on CFX	$30	$35	$40	Per plate service is performed on a plate that is ready to run and includes data delivery.
NextGen Sequencing Library Quantification	$45	$50	$67.50	Service includes quantification of the NextGen Sequencing Library.
NextGen Sequencing Library Quantification (30 or more submitted at one time)	$35	$38.50	$52.50	Service includes quantification of the NextGen Sequencing Library with bulk rate discount.
Plate Set-Up Fee for 384 well Absolute Quantification	$50	$75	$100	Service includes 384 well plate set-up and cost of consumables.
Plate Set-Up Fee for Pathway Plates (96 or 384 well)	$50	$75	$100	Service includes 96 or 384 well plate set-up and cost of consumables.
Plate/Opti-cap per plate	$10	$15	$20	Per plate service includes the plate and Opti-cap.
Post Amplification Read (SNP Genotyping)	$10	$15	$20	Service is performed on a plate that is ready to run.
Primer and Probe Sets Assay Design (20 reactions)	$30	$35	$40	Technician uses software for primer design.
qPCR Equipment Use Fee (Full Service)	$50	$75	$100	Service is performed on a plate that is ready to run.
qPCR Equipment Use Fee (Full Service) more than 5 plates per month.	$40	$60	$80	Service is performed on a plate that is ready to run.
RT Profiler PCR Arrays - Chemistry	$150	$187.50	$187.50	Service includes expression analysis of a focused panel of genes.
SYBR Green Chemistry qPCR Optimization	$1250	$1875	$2500	Service includes the optimization of template and primers concentrations for better qPCR results.
SYBR Green Dissociation Curve Test	$20	$30	$40	Service is performed on a plate that is ready to run.
SYBR Green qPCR (per sample/per gene)	$15	$22	$30	Service includes SYBR Green qPCR analysis for one sample per gene done in triplicate.
SYBR Green qPCR Reaction	$5	$7.50	$10	Service includes SYBR Green qPCR analysis for one sample in one well starting with gDNA or cDNA.
SYBR Green qPCR Reaction Mix	$100	$150	$200	Service includes SYBR Green qPCR analysis per plate.
SYBR Green RT-qPCR (per sample/per gene)	$25	$38	$50	Service includes SYBR Green qPCR analysis for one sample per gene, done in triplicate, starting with total RNA.
TaqMan Chemistry qPCR Optimization	$950	$1425	$1900	Service includes optimization of template, primers and probe concentrations for better TaqMan assay result.
TaqMan Low Density Array (TLDA) Chemistry and Plate Set-up	$160	$240	$320	Service includes set-up and run of TaqMan Low Density Array and raw data delivery.
TaqMan qPCR (1 reaction)	$7	$10.50	$14	Service includes TaqMan qPCR analysis for one sample, in one well, starting with gDNA or cDNA.
TaqMan qPCR (per sample/per gene)	$20	$30	$40	Service includes TaqMan qPCR analysis for one sample per gene, done in triplicate.
TaqMan qPCR reaction mix (per plate)	$150	$225	$300	Service includes TaqMan qPCR analysis per plate.
TaqMan RT-qPCR (per sample/per gene)	$30	$45	$60	Service includes TaqMan qPCR analysis for one sample per gene, done in triplicate, starting with total RNA.